Infants who required mechanical ventilation had tracheal aspirates samples collected at 7, 14, and 21 days of age (+/- 48 hours). Infants who were mechanically ventilated and had at least one tracheal aspirate collected were included in this study. Subjects were required to be enrolled within 7 days of age. Bacterial profiles were determined by broad-range amplification and sequence analysis of 16S rRNA genes.

datasets

A reliable alternative to popular microbiome analysis R packages. We provide standard tools as well as novel extensions on standard analyses to improve interpretability and the analyst<e2><80><99>s ability to communicate results, all while maintaining object malleability to encourage open source collaboration.

Charlie Carpenter

tidyMicro

A Pipeline for Microbiome Analysis and Visualization

Dan Frank

Kayla Williamson

Rachel Johnson

cla function

A 34x75 data.frame<dl class="dl-horizontal">
 <dt><code>OTU_Name</code></dt><dd>A character vector of class level OTU names</dd>
 <dt><code>Lib names</code></dt><dd>The following columns are the sequencing counts for each library with library names</dd>
</dl>

Format

An OTU table of class level taxa counts — cla

A 34x75 data.frame<dl class='dl-horizontal'>
 <dt><code>OTU_Name</code></dt><dd>A character vector of class level OTU names</dd>
 <dt><code>Lib names</code></dt><dd>The following columns are the sequencing counts for each library with library names</dd>
</dl>

cla: An OTU table of class level taxa counts

Description

Usage

Arguments

Format